replaceAll() help

Firstly, I haven't made this code because I've never dealt with reading text from another file, so beside using scanners the PrintWriter and ReplaceAll() were new to me.
So basically what i'm trying to build is a code optimizer that i can build a .bat file around to quickly optimize some of code for other programming languages.
So far i have 3 problems.

1. I can't figure out how skip certain patterns (for example in one file im testing with it has a Random() when i set this program to replaceAll("and","and1") it not only changed the and's to and1's but random() to rand1m()).
2. It can't accept programming symbols in certain syntax, i need to be able to replace text with any character i need (ex. change all "and" to "&&"), when i try to do this i get syntax error in cmd.
3. i need to be able to overwrite the same file im using it on (so if i used a.txt i want all the revisions done on a.txt not have an output file ex. b.txt). Thanks guys

Code :

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import java.io.*;
import java.util.*;
 
public class replace {
  public static void main(String[] args) throws Exception {
    // Check command line parameter usage
    if (args.length != 4) { // obviously, once i remove the "newStr" arg (arg[4]) this will become args.length != 3
      System.out.println(
        "Usage: java replace sourceFile targetFile oldStr newStr"); //that's how i call it - need to remove "newStr" arg
      System.exit(0);
    }
 
    // Check if source file exists
    File sourceFile = new File(args[0]);
    if (!sourceFile.exists()) {
       System.out.println("Source file " + args[0] + " does not exist");
       System.exit(0);
    }
 
    // Check if target file exists
    File targetFile = new File(args[1]);
    if (targetFile.exists()) {
      System.out.println("Target file " + args[1] + " already exists"); // this is what i want to change to overwrite to same file
      System.exit(0);
    }
 
    // Create input and output files
    Scanner input = new Scanner(sourceFile);
    PrintWriter output = new PrintWriter(targetFile);
 
    while (input.hasNext()) {
      /*
      if (input.hasNext("math.random()")){
    	  input.skip("math.random()");
    	  System.out.println("skipped math.random()");
      }if(input.hasNext("math.Rand()")){
    	  input.skip("math.Rand()");
    	  System.out.println("skipped math.Rand()");
      }
      */
      // above ^^ is what i tried to skip certain patterns of text, but when i tested i had no changed output
      String s1 = input.nextLine();
      String s2 = s1.replaceAll(args[2], args[3]); // i understand why it doesn't work when i try to replace text to programming specific characters like replacing 'and' to '&&' but is there a way to make it work?
      output.println(s2);
    }
 
    input.close();
    output.close();
  }
}

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this code is pretty vanilla i just added the commented part. I've only been coding java for about a year (i'm 16) but i could really use the help guys, i can really learn from this too later on i may need to store text in another file and call it to a program. thanks for the help.

try to scan word by word.. and do a if statement to check if the word is and or random

for example you could try:

Code Java:

---

if (word.equals("and"))
{
   --- CODE here (use Replace not ReplaceAll()..)
}
else if (word.equals("random"))
{
--- CODE here..
}
else{}

---

This is only a quick demo to look over (use as reference and learn off it)

Your replace is for a substring no matter its context.
Put the Strings into a context by adding delimiters before and after the String. For example spaces: " and ".
There could be lots of different delimiters depending on what the source file contains. You might need a separate list for each type of source file you are scanning. And there could be different leading and following delimiters.

Quote:

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i need to be able to overwrite the same file im using it on

---

You should write to a new temp file. When the code completes successfully, delete the original (I'd rename it to be safe) and then rename to temp file to the name of the original.
Overwriting the original is a bad idea. Especially during testing when there are bugs. Or what if the new file is different size than the old one?